Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

187

Sequences:

3784

Seq/Len:

20.24

HH_delta:

0.956 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

2_R

6_I

1.35147

3.630

23_I

88_L

1.15409

3.100

41_E

49_P

1.15306

3.097

160_Y

164_N

1.09902

2.952

39_R

51_R

1.09489

2.941

30_E

78_P

1.04979

2.819

26_L

79_V

1.0348

2.779

41_E

51_R

1.02118

2.743

97_V

136_I

0.96348

2.588

57_T

83_L

0.92686

2.489

82_F

86_T

0.89461

2.403

13_L

95_W

0.79412

2.133

139_L

143_N

0.7916

2.126

153_E

156_E

0.77802

2.090

105_V

137_T

0.74723

2.007

4_F

8_L

0.73505

1.974

172_K

176_K

0.73209

1.966

10_L

98_L

0.70511

1.894

24_A

36_V

0.68139

1.830

44_G

134_P

0.67739

1.819

28_K

34_G

0.67118

1.803

23_I

83_L

0.6503

1.747

139_L

160_Y

0.64623

1.736

39_R

53_Y

0.64031

1.720

53_Y

96_N

0.63421

1.703

9_A

13_L

0.62761

1.686

28_K

36_V

0.62631

1.682

5_D

103_S

0.62513

1.679

22_I

26_L

0.6071

1.631

23_I

55_F

0.60235

1.618

37_F

53_Y

0.60038

1.612

176_K

180_A

0.59974

1.611

132_V

162_I

0.58346

1.567

61_N

65_D

0.5794

1.556

49_P

112_P

0.5656

1.519

110_E

114_E

0.55847

1.500

105_V

174_I

0.55719

1.496

35_P

60_V

0.54362

1.460

20_F

55_F

0.53936

1.449

95_W

99_K

0.53794

1.445

8_L

104_L

0.53584

1.439

16_L

20_F

0.52321

1.405

59_R

65_D

0.51164

1.374

79_V

83_L

0.51088

1.372

179_R

183_K

0.50441

1.355

9_A

98_L

0.50272

1.350

27_I

30_E

0.50181

1.348

1_K

5_D

0.49589

1.332

43_V

49_P

0.49369

1.326

160_Y

169_L

0.49315

1.324

1_K

170_D

0.48988

1.316

6_I

10_L

0.48971

1.315

138_G

141_Q

0.48717

1.308

14_I

17_S

0.48155

1.293

12_L

16_L

0.47903

1.287

104_L

174_I

0.47747

1.282

27_I

31_S

0.45784

1.230

12_L

104_L

0.45481

1.221

25_I

29_L

0.44751

1.202

167_L

171_L

0.445

1.195

139_L

173_I

0.44179

1.187

138_G

154_K

0.44024

1.182

114_E

118_Y

0.43454

1.167

87_S

145_R

0.43381

1.165

6_I

9_A

0.4282

1.150

112_P

116_E

0.42631

1.145

12_L

94_L

0.42271

1.135

13_L

17_S

0.42159

1.132

143_N

176_K

0.42027

1.129

94_L

104_L

0.4202

1.129

45_K

133_K

0.4198

1.127

43_V

115_V

0.41523

1.115

161_Y

170_D

0.41456

1.113

146_S

150_D

0.41145

1.105

174_I

178_I

0.41039

1.102

139_L

169_L

0.40838

1.097

83_L

86_T

0.40653

1.092

1_K

165_W

0.39897

1.072

144_G

148_L

0.39717

1.067

127_R

163_E

0.39516

1.061

111_V

114_E

0.39504

1.061

145_R

148_L

0.39435

1.059

10_L

14_I

0.39344

1.057

40_Q

52_I

0.39289

1.055

72_N

81_R

0.39055

1.049

38_F

63_D

0.38748

1.041

8_L

12_L

0.3874

1.040

91_L

94_L

0.38438

1.032

110_E

115_V

0.38173

1.025

140_A

154_K

0.37845

1.016

6_I

98_L

0.37606

1.010

28_K

31_S

0.37585

1.009

35_P

56_R

0.37509

1.007

47_G

130_L

0.37465

1.006

2_R

9_A

0.37446

1.006

110_E

154_K

0.3732

1.002

127_R

131_S

0.37296

1.002

111_V

118_Y

0.37046

0.995

175_L

179_R

0.36762

0.987

181_V

185_G

0.36578

0.982

27_I

36_V

0.36536

0.981

18_P

21_L

0.36156

0.971

53_Y

99_K

0.3613

0.970

96_N

101_D

0.35912

0.965

110_E

151_F

0.35835

0.962

139_L

157_L

0.35542

0.955

1_K

103_S

0.35231

0.946

137_T

177_T

0.35214

0.946

53_Y

95_W

0.34918

0.938

141_Q

158_D

0.34864

0.936

36_V

55_F

0.34636

0.930

31_S

34_G

0.34598

0.929

59_R

62_A

0.34563

0.928

23_I

26_L

0.34433

0.925

150_D

153_E

0.34077

0.915

110_E

118_Y

0.33915

0.911

125_Y

130_L

0.33578

0.902

76_I

81_R

0.33368

0.896

87_S

154_K

0.33368

0.896

17_S

20_F

0.33165

0.891

78_P

81_R

0.3304

0.887

145_R

151_F

0.32948

0.885

113_E

118_Y

0.32831

0.882

30_E

79_V

0.32813

0.881

83_L

88_L

0.3229

0.867

20_F

91_L

0.31946

0.858

24_A

27_I

0.31651

0.850

61_N

64_D

0.31617

0.849

59_R

74_P

0.31503

0.846

17_S

21_L

0.31483

0.846

138_G

155_L

0.31211

0.838

151_F

154_K

0.31174

0.837

18_P

22_I

0.30809

0.827

38_F

111_V

0.30765

0.826

119_S

125_Y

0.30763

0.826

118_Y

151_F

0.30755

0.826

4_F

167_L

0.30278

0.813

26_L

30_E

0.30189

0.811

115_V

118_Y

0.30182

0.811

50_F

102_M

0.29767

0.799

30_E

77_T

0.29541

0.793

87_S

181_V

0.29525

0.793

19_L

23_I

0.29459

0.791

95_W

101_D

0.2926

0.786

14_I

18_P

0.29057

0.780

143_N

157_L

0.28752

0.772

97_V

104_L

0.28473

0.765

46_N

131_S

0.28473

0.765

179_R

184_K

0.28404

0.763

30_E

33_P

0.27991

0.752

164_N

169_L

0.27863

0.748

166_S

169_L

0.27839

0.748

168_W

172_K

0.27768

0.746

124_E

156_E

0.27752

0.745

13_L

98_L

0.27749

0.745

4_F

104_L

0.27613

0.742

16_L

19_L

0.2741

0.736

43_V

112_P

0.27235

0.731

8_L

11_L

0.2705

0.726

115_V

130_L

0.27009

0.725

114_E

117_L

0.2694

0.724

3_A

6_I

0.26648

0.716

69_T

140_A

0.26623

0.715

2_R

5_D

0.26606

0.715

152_E

156_E

0.26601

0.714

128_R

159_L

0.2651

0.712

72_N

75_R

0.26468

0.711

94_L

136_I

0.26465

0.711

144_G

150_D

0.26414

0.709

85_K

93_Q

0.26316

0.707

20_F

23_I

0.26282

0.706

110_E

155_L

0.26003

0.698

7_V

11_L

0.2591

0.696

16_L

94_L

0.25715

0.691

171_L

175_L

0.25669

0.689

43_V

130_L

0.25582

0.687

24_A

28_K

0.25498

0.685

21_L

25_I

0.25446

0.683

147_E

150_D

0.25278

0.679

179_R

182_L

0.25153

0.676

142_V

176_K

0.25022

0.672

138_G

158_D

0.25004

0.672

43_V

111_V

0.24971

0.671

169_L

172_K

0.24956

0.670

18_P

94_L

0.24857

0.668

16_L

23_I

0.24842

0.667

139_L

164_N

0.24829

0.667

20_F

37_F

0.24752

0.665

114_E

140_A

0.24744

0.665

165_W

169_L

0.24683

0.663

111_V

151_F

0.24651

0.662

52_I

93_Q

0.24601

0.661

119_S

126_R

0.24597

0.661

21_L

24_A

0.24577

0.660

39_R

52_I

0.24573

0.660

155_L

159_L

0.24567

0.660

20_F

95_W

0.2447

0.657

13_L

20_F

0.2437

0.655

125_Y

128_R

0.24301

0.653

30_E

83_L

0.24257

0.651

74_P

140_A

0.24216

0.650

61_N

74_P

0.24176

0.649

54_K

90_E

0.24006

0.645

66_G

70_L

0.23931

0.643

27_I

83_L

0.23883

0.641

12_L

174_I

0.23864

0.641

26_L

29_L

0.23858

0.641

95_W

98_L

0.23788

0.639

67_K

70_L

0.23725

0.637

142_V

180_A

0.23528

0.632

128_R

158_D

0.23517

0.632

140_A

143_N

0.23404

0.629

4_F

171_L

0.23383

0.628

9_A

104_L

0.23134

0.621

178_I

181_V

0.23118

0.621

6_I

13_L

0.23084

0.620

27_I

56_R

0.23021

0.618

159_L

162_I

0.2288

0.614

9_A

14_I

0.22847

0.614

9_A

16_L

0.22825

0.613

65_D

68_Q

0.22814

0.613

176_K

179_R

0.22777

0.612

34_G

60_V

0.22517

0.605

28_K

35_P

0.22509

0.605

9_A

17_S

0.22439

0.603

11_L

14_I

0.22352

0.600

79_V

82_F

0.22253

0.598

180_A

184_K

0.22221

0.597

147_E

185_G

0.22015

0.591

148_L

154_K

0.21844

0.587

78_P

82_F

0.21747

0.584

110_E

140_A

0.21663

0.582

131_S

163_E

0.21611

0.580

126_R

130_L

0.21609

0.580

16_L

55_F

0.21602

0.580

66_G

113_E

0.21522

0.578

87_S

144_G

0.21462

0.576

144_G

147_E

0.21447

0.576

110_E

128_R

0.21397

0.575

178_I

182_L

0.21176

0.569

19_L

22_I

0.21097

0.567

54_K

58_M

0.21069

0.566

112_P

115_V

0.2102

0.565

105_V

165_W

0.20924

0.562

22_I

25_I

0.20852

0.560

31_S

79_V

0.2082

0.559

90_E

93_Q

0.20747

0.557

107_P

132_V

0.20723

0.557

68_Q

118_Y

0.20657

0.555

173_I

177_T

0.20525

0.551

33_P

60_V

0.20381

0.547

8_L

94_L

0.2034

0.546

47_G

126_R

0.20249

0.544

2_R

133_K

0.20243

0.544

168_W

175_L

0.20223

0.543

111_V

115_V

0.20219

0.543

27_I

79_V

0.20196

0.542

139_L

176_K

0.20073

0.539

29_L

33_P

0.20049

0.538

43_V

114_E

0.20037

0.538

124_E

128_R

0.20015

0.538

128_R

163_E

0.19974

0.536

58_M

75_R

0.19949

0.536

40_Q

110_E

0.19893

0.534

114_E

151_F

0.19806

0.532

84_R

90_E

0.19688

0.529

27_I

35_P

0.19665

0.528

41_E

112_P

0.19473

0.523

59_R

76_I

0.19437

0.522

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)